Dna vaccines and methods for the prevention of transplantation rejection

ABSTRACT

Methods for preventing, delaying the onset of, or treating rejection of an allograft using a DNA vaccine, where the vaccine can comprise a polynucleotide encoding a pro-apoptotic protein, like BAX and/or a polynucleotide encoding an autoantigen or donor antigen, like secreted glutamic acid decarboxylase 55. Administering one of the DNA vaccines to a transplant recipient, as described herein, can induce a donor specific tolerogenic response.

BACKGROUND

Prevention of organ rejection in the clinic presently relies onadministration of cocktails of immunosuppressants (Tacrolimus,Rapamycin, MMF, AZA, corticosteroids). The drugs are efficient forprevention of acute rejection, but do not prevent chronic rejection. Inaddition, because these drugs interfere with immune responsesnon-specifically, their chronic use exposes patients to high risks ofcancer and infection. Other approaches that are being tested areco-stimulatory blockade and bone-marrow chimerism. However, “late-onsetchronic rejection, as well as the toxicity of some of these regimens,remain as significant limitations that hamper clinical application”(Ochiai et al., Front. Biosci. 2007, 12:4248-53).

SUMMARY

One embodiment of the present invention comprises a method forpreventing, delaying the onset of, or treating rejection of an allograftor an allogeneic transplant. The method comprises: (A) selecting arecipient in need of a graft or transplant and an allograft orallogeneic transplant donor; (B) grafting tissue or transplanting asolid organ from the donor to the recipient; and (C) administering tothe recipient one or more than one dose of a DNA vaccine. The DNAvaccine is selected from the group consisting of: three individualplasmids and a two plasmid vaccine. The first plasmid comprises (a) apolynucleotide encoding a pro-apoptotic protein; and (b) a promotercontrolling the expression of the polynucleotide encoding thepro-apoptotic protein. The second plasmid comprises: (a) apolynucleotide sequence encoding an autoantigen or donor antigen; (b) apromoter controlling expression of the polynucleotide sequence encodingthe autoantigen or donor antigen; and (c) a plurality of CpG motifs,where the CpG motifs are methylated sufficiently to diminish therecipient's immune response to unmethylated CpG motifs. The thirdplasmid comprises: (a) a polynucleotide sequence encoding an autoantigenor donor antigen; (b) a promoter controlling expression of thepolynucleotide sequence encoding the autoantigen or donor antigen; (c) apolynucleotide encoding a pro-apoptotic protein; (d) a promotercontrolling expression of the polynucleotide encoding the pro-apoptoticprotein; and (e) a plurality of CpG motifs, where the CpG motifs aremethylated sufficiently to diminish the recipient's immune response tounmethylated CpG motifs. The two plasmid vaccine comprises a combinationof the first plasmid and the second plasmid.

In some embodiments of the present invention, the engrafted tissues ortransplanted organs are selected from the group consisting of skingrafts, islet cell transplants, and partial or whole organ transplants.In additional embodiments of the method, the partial or whole organtransplants are selected from the group consisting of hearts, lungs,kidneys and livers.

In one embodiment of the method, the DNA vaccine is one or more than oneplasmid comprising a plurality of methylated CpG motifs, where the oneor more than one plasmid is resistant to digestion by the restrictionenzyme HpaII. In a preferred embodiment, the DNA vaccine is one or morethan one plasmid comprising a plurality of CpG motifs, where the CpGmotifs of one or more than one plasmid are methylated by SssI methylase.

In one embodiment of the present invention, the promoter capable ofexpressing the polynucleotide encoding the autoantigen or the donorantigen, or the promoter capable of expressing the polynucleotideencoding the pro-apoptotic protein, or both the promoter capable ofexpressing the polynucleotide encoding the autoantigen or the donorantigen, and the promoter capable of expressing the polynucleotideencoding the pro-apoptotic protein maintain their promoter functionafter methylation.

In another embodiment of the present method, the third plasmid furthercomprises an internal ribosome entry site (IRES) sequence, where theIRES sequence is SEQ ID NO:3 from the EMC virus, to permit translationof the polynucleotide encoding the autoantigen or the donor antigen, andthe polynucleotide encoding the pro-apoptotic protein from the sametranscript.

In one embodiment of the present invention, the DNA vaccine comprisesthe first plasmid and the second plasmid in a ratio of between 1/1000 to1000/1. In a preferred embodiment, the DNA vaccine comprises the firstplasmid and the second plasmid in a ratio of between 1/100 to 100/1. Ina particularly preferred embodiment, the DNA vaccine comprises the firstplasmid and the second plasmid in a ratio of between 1/10 to 10/1.

In specific embodiments of the present invention, the autoantigen ordonor antigen 1s selected from the group consisting of carbonicanhydrase II, collagen, CYP2D6 (cytochrome P450, family 2, subfamilyDevice 400, polypeptide 6), glutamic acid decarboxylase, secretedglutamic acid decarboxylase 55, SEQ ID NO:1, insulin, myelin basicprotein and SOX-10 (SRY-box containing gene 10) or any relevantautoantigen that is present in both the transplant recipient and thedonor allograft.

In additional specific embodiments, the pro-apoptotic protein isselected from the group consisting of BAX, SEQ ID NO:2, a modifiedcaspase, Tumor Necrosis Factor Receptor, Death Receptor 3 (DR3), DeathReceptor 4 (DR4), Death Receptor 5 (DRS) and a FAS receptor.

In one embodiment of the method, the DNA vaccine is administered in aneffective dose, wherein an effective dose is an amount sufficient toprevent, delay the onset, or treat rejection of an allograft or anallogeneic transplant by the recipient.

In another embodiment of the method, the DNA vaccine is administered inan effective dose, wherein an effective dose is an amount sufficient toinduce a donor-specific tolerogenic response.

In preferred embodiments, the DNA vaccine is (a) administered in aplurality of doses; (b) the dose of the DNA vaccine is about 0.001 mg/Kgof body weight of the recipient to about 100 mg/Kg of body weight of therecipient; and/or (c) the dose is administered weekly between two timesand 100 times.

In some embodiments the DNA vaccine is administered by an epidermal,intradermal, intramuscular, intranasal, intravenous, intraperitoneal ororal route. In a preferred embodiment, the DNA vaccine is administeredby an injection proximal to the site of the allograft or allogeneictransplant.

In one embodiment, the method further comprises the step ofadministering a dose of one or more than one immunosuppressant agentbefore, on the day of and/or after engraftment or transplantation. Aswill be appreciated by one of skill in the art, with reference to thepresent disclosure, the dose of one or more than one immunosuppressantagent can be administered simultaneously, separately or sequentially.

In specific embodiments, the one or more than one immunosuppressantagent is selected from the group consisting of corticosteroids,glucocorticoids. cyclophosphamide, 6-mercaptopurine, azathioprine,methotrexate cyclosporine, mycophenolate mofetil, mycophenolic acid,tacrolimus, sirolimus, everolimus, mizoribine, leflunomide,deoxyspergualin, brequinar, azodicarbonamide, vitamin D analogs,antilymphocyte globulin, antithymocyte globulin, anti-CD3 monoclonalantibodies, anti-interleukin-2 receptor (anti-CD25) antibodies,anti-CD52 antibodies, anti-CD20 antibodies, anti-tumor necrosis factorreagents and LFA-1 inhibitors.

In a preferred embodiment, the method includes the step of administeringa single dose of antilymphocyte globulin, at a dosage of about 1.6 mg/20g of body weight, on the day of engraftment or transplantation.

In another preferred embodiment, the method includes the step ofadministering rapamycin at a dosage of from 0.05 to 15 mg/day.

One embodiment of the present invention provides a method forpreventing, delaying the onset of or treating rejection of an allograftor an allogeneic transplant, comprising the steps of: (A) selecting agraft or transplant recipient and an allograft or allogeneic transplantdonor; (B) grafting tissue or transplanting a solid organ from the donorto the recipient; and (C) inducing a donor-specific immune response thatelevates regulatory T cell activity by administering to the recipientone or more than one dose of a DNA vaccine comprising a first plasmidand a second plasmid. The first plasmid comprises: (a) a polynucleotideencoding a pro-apoptotic protein; and (b) a promoter controlling theexpression of the polynucleotide encoding the pro-apoptotic protein. Thesecond plasmid comprises: (a) a polynucleotide sequence encoding anautoantigen or donor antigen; (b) a promoter controlling expression ofthe polynucleotide sequence encoding the autoantigen or donor antigen;and (c) a plurality of CpG motifs, where the CpG motifs are methylatedsufficiently to diminish the recipient's immune response to unmethylatedCpG motifs.

In one version of this embodiment, administration of the plasmidselevates expression of IL-4 (interleukin 4). In another version of thisembodiment, administration of the plasmids further induces adonor-specific tolerogenic response. In yet another version of thisembodiment, administration of the plasmids elevates expression ofinhibitory Fe receptor, FcγIIb, and II-1ra. In still another version ofthis embodiment, administration of the plasmids reduces an autoimmuneresponse. In an alternative version of this embodiment, administrationof the plasmids reduces expression of Tnfα (tumor necrosis factor) andIfnγ (gamma interferon). As will be appreciated by one of skill in theart with reference to the present disclosure, alternative versions ofthe method can include alternative steps where the first plasmid and thesecond plasmid are administered simultaneously or sequentially.

BRIEF DESCRIPTION OF THE DRAWINGS

These features, aspects and advantages of the present invention willbecome better understood with regard to the following description,appended claims and accompanying drawings where:

FIG. 1 shows schematic depictions of the plasmids disclosed herein,including plasmid vectors pSG5 and pND2, a plasmid containing apolynucleotide encoding secreted glutamic acid decarboxylase 55 (SGAD55)operably linked to a SV40 promoter (pSG5-sgad55), a plasmid containing apolynucleotide encoding a pro-apoptotic protein (hBAX) operably linkedto an HCMV promoter (pND2-hBAX), and a plasmid containing apolynucleotide encoding SGAD55 and hBAX operably linked to an SV40promoter (pSG5-sga55-bax).

FIGS. 2A-2B show the effects of DNA vaccination on skin allograftsurvival. 7-week-old, age matched C57BL/6 recipients (N=8-14) receivedskin grafts from BALB/c donor under minimum immune suppression regimen(IS) that was ended on day 28, and received a weekly i.d. injection of50 μg of the indicated vaccine. The BAX and sGAD vaccines arenon-CpG-methylated plasmid DNA coding for BAX and sGAD alone,respectively. The MsGAD DNA vaccine consists of CpG-methylated plasmidDNA coding for sGAD alone. The MsGAD-BAX vaccine consists of a 4:1 ratioof MsGAD:BAX plasmid DNA. FIGS. 2A and 2B show allograft survival afterimmunization with non-methylated and methylated vaccines, respectively.#, P<0.003 compared to vector and IS alone (Mann-Whitney), @, P<0.005compared to methylated vector (Mvector) and IS alone, ♦, P<0.04 comparedto sGAD in A, ★, P<0.04 compared to methylated, non-methylated vectorcontrols and IS alone (Kaplan-Meier).

FIGS. 3A-3C shows the results of quantitative gene expression analysisin skin and LNs of recipient mice. C57BL/6 mice under minimumimmunosuppression received BALB/c skin grafts and were immunized withthe BAX or MsGAD-BAX DNA vaccine. Fresh skin allografts (3A) and freshlymph nodes (LNs) (3B) were taken 2 weeks after transplant for qPCRanalysis. In addition, LNs were stimulated with self, donor, orthird-party (C3H) antigens for analysis (3C). Results are shown as foldof gene expression relative to non-vaccinated C57BL/6 mice under minimumimmunosuppression (control). In FIGS. 3A and 3B, @, P<0.05 compared tocontrol. In FIG. 3 C, #, @, P<0.05 compared to cells stimulated withself and third-party antigens, respectively.

FIG. 4 shows the results of the adoptive transfer of immune cells frompooled LNs and spleen. Adoptive transfer donor (C57BL/6) received BALB/cskin graft and minimum immunosuppression. Splenocytes and draining lymphnode cells were then isolated on day 14, and injected i.p. on day −2into adoptive transfer recipients (C57BL/6, N=4-5) receiving donor(BALB/c, D) or third party (C3H, T) skin grafts at day 0. The recipientsalso received 3 Gy irradiation at day −3, and daily rapamycin i.p. @,P<0.05 compared to third party.

FIG. 5 shows the results of mixed lymphocyte reactions where LN cellswere isolated from recipients receiving donor skin grafts and immuneregimen for 2 weeks, and 4×10⁵ LN cells were mixed with 4×10⁵ mitomycintreated splenocytes from BALB/c donor or C3H third-party mice inpresence of 2 or 5 μg/ml IL-2. @, P<0.05 compared to third partyantigens.

DETAILED DESCRIPTION

As used in this disclosure, except where the context requires otherwise,the term “comprise” and variations of the term, such as “comprising,”“comprises” and “comprised” are not intended to exclude other additives,components, integers or steps.

As used in this disclosure, the terms “graft” and “transplant” are usedinterchangeably and refer to an organ or tissue taken from the body andgrafted into another area of the same individual or another individual.

As used in this disclosure, the term “allograft” comprises a graft oftissue between individuals of the same species but of disparategenotype; types of donors include cadaveric, living related, and livingunrelated.

As used in this disclosure, the term “allogeneic” denotes individuals ofthe same species but of different genetic constitution.

As used in this disclosure, the term “allogeneic transplantation”denotes transplantation of an allograft.

As used in this disclosure, the term “DNA vaccine” comprises DNAsequences that code for immunogenic proteins located in appropriatelyconstructed plasmids, which include strong promoters, which wheninjected into an animal are taken up by cells and the immunogenicproteins are expressed and elicit an immune response.

As used in this disclosure, the term “autoantigen” comprises anendogenous antigen that stimulates the production of autoantibodies, asin an autoimmune reaction, as well as part of such endogenous antigens,or modified endogenous antigens that elicit the same response as thefull endogenous antigen, as will be understood by those with skill inthe art with reference to this disclosure. For example, in the contextof this disclosure secreted glutamic acid decarboxylase 55 and humanizedBAX are both autoantigens.

As used in this disclosure, the term “donor antigen” comprises anantigen from an allograft that was transplanted into the recipient totake the place of defective or absent cells or tissues, such as forexample skin grafts and islet cell transplants, and partial or wholeorgan transplants, including transplanted hearts, lungs, kidneys andlivers, and that stimulates the production of antibodies that produce animmune reaction, as well as part of such donor antigens, or modifieddonor antigens that elicit the same response as the full donor antigen,as will be understood by those with skill in the art with reference tothis disclosure. For example, in the context of this disclosure,secreted glutamic acid decarboxylase 55 is a donor antigen for skingrafts and islet cell transplants.

Examples of a pro-apoptotic protein include BAX (SEQ ID NO:2), amodified caspase, Tumor Necrosis Factor Receptor, Death Receptor 3(DR3), Death Receptor 4 (DR4), Death Receptor 5 (DRS) and a FASreceptor. As used in this disclosure, the term “hBAX” and “BAX” areinterchangeable.

As will be understood by those with skill in the art with reference tothis disclosure, when reference is made to a protein encoded by apolynucleotide sequence, the protein includes “conservativesubstitutions” in which an amino acid is substituted for another aminoacid that has similar properties, such that one skilled in the art ofpeptide chemistry would expect the secondary structure and hydropathicnature of the polypeptide to be substantially unchanged. A conservativesubstitution occurs when one amino acid residue is replaced with anotherthat has a similar side chain. Amino acid residues having similar sidechains are known in the art and include families with basic side chains(e.g., lysine (Lys/K), arginine (Arg/R), histidine (His/H)), acidic sidechains (e.g., aspartic acid (Asp/Device 400), glutamic acid (Glu/E)),uncharged polar side chains (e.g., glycine (Gly/G), asparagine (Asn/N),glutamine (Gln/Q), serine (Ser/S), threonine (Thr/T), tyrosine (Tyr/Y),cysteine (Cys/C)), nonpolar side chains (e.g., alanine (Ala/A), valine(Val/V), leucine (Leu/L), isoleucine (Ile/I), praline (Pro/P),phenylalanine (Phe/F), methionine (Met/M), tryptophan (Trp/W)), branchedside chains (e.g., threonine (Thr/T), valine (Val/V), isoleucine(Ile/I)) and aromatic side chains (e.g., tyrosine (Tyr/Y), phenylalanine(Phe/F), tryptophan (Trp/W), histidine (His/H)).

As used in this disclosure, a CpG motif is a polynucleotide regioncharacterized by dinucleotides containing cytosine residues in thesequence CG. As will be understood by those with skill in the art withreference to this disclosure, bacterial DNAs containing unmethylated CpGmotifs, stimulate the immune system in mammals to start a sequence ofreactions leading to an immune reaction and inflammation. However,methylated CpG motifs may be applied to alleviate or inhibit theunwanted immune stimulation and inflammation by bacterial DNA.

Apoptotic cells are routinely processed by antigen presenting cells(APCs) like dendritic cells (DCs) to establish and maintainantigen-specific tolerance. DNA vaccines can induce apoptotic cellsdirectly in vivo, and permit the engineering of the induced apoptoticcells. Unlike the use of immunosuppressants and co-stimulatory blockade,this is a “top down” approach that has the potential to induce specificimmunoregulation via physiological modulation of APC function. In someembodiments, the present invention provides for the use of threedifferent plasmid DNA constructs, and combinations thereof, as DNAvaccines to increase survival of allografts. Specific embodiments ofeach of the constructs causes increased survival of engrafted skin wheninjected into mice receiving skin allografts.

According to one embodiment of the present invention, there is provideda method of preventing, delaying the onset of, or treating the rejectionof an allograft or an allogeneic transplant. In one embodiment, themethod comprises, first, selecting a recipient in need of a graft ortransplant and an allograft or allogeneic transplant donor. Theselection can be made using standard methods as will be understood bythose with skill in the art with reference to this disclosure.

According to one embodiment, the method further comprises engraftingtissue or transplanting a solid organ from the donor to the recipient totake the place of defective or absent cells or tissues. Engraftedtissues or transplanted organs can include a skin grafts, islet celltransplants, and partial or whole organ transplants includingtransplanted hearts, lungs, kidneys and livers.

According to one embodiment, the method further comprises administeringto the recipient a DNA vaccine comprising one or more polynucleotidesencoding (1) a pro-apoptotic protein, (2) an autoantigen or donorantigen, or (3) a pro-apoptotic protein and an autoantigen or donorantigen.

In one embodiment, a DNA vaccine for use in the present inventioncomprises a plasmid, the plasmid comprising a polynucleotide encoding apro-apoptotic protein under the control of a promoter capable ofexpressing the polynucleotide encoding the pro-apoptotic protein.

In another embodiment, a DNA vaccine for use in the present inventioncomprises a plasmid, the plasmid comprising a polynucleotide encoding anautoantigen or a donor antigen operably linked to a promoter capable ofcontrolling the expression of the polynucleotide encoding theautoantigen or the donor antigen, where the plasmid comprises aplurality of CpG motifs, and where at least some of the plurality of CpGmotifs are methylated. In a preferred embodiment, the CpG motifs aremethylated sufficiently to inhibit the recipient's immune response tounmethylated plasmid DNA. In a particularly preferred embodiment, theplasmid is resistant to digestion by the restriction endonuclease HpaII,which digests unmethylated but not methylated DNA. In anotherembodiment, the CpG motifs are methylated by SssI methylase.

In another embodiment, the plasmid comprising a polynucleotide encodingan autoantigen or a donor antigen can further comprise a polynucleotideencoding a pro-apoptotic protein under the control of a promoter capableof expressing the polynucleotide encoding the pro-apoptotic protein.

In a preferred embodiment, the promoter capable of expressing thepolynucleotide encoding the autoantigen or the donor antigen, and thepromoter capable of expressing the polynucleotide encoding thepro-apoptotic protein, are a single promoter.

In a preferred embodiment, the promoter capable of expressing thepolynucleotide encoding the autoantigen or the donor antigen, or thepromoter capable of expressing the polynucleotide encoding thepro-apoptotic protein, or both the promoter capable of expressing thepolynucleotide encoding the autoantigen or the donor antigen, and thepromoter capable of expressing the polynucleotide encoding thepro-apoptotic protein, maintain their promoter function aftermethylation.

In another embodiment, the plasmid comprises an internal ribosome entrysite (IRES) sequence, to permit translation of the polynucleotideencoding the autoantigen or the donor antigen and the polynucleotideencoding the pro-apoptotic protein from the same transcript.

In another embodiment, the DNA vaccine of the present inventioncomprises a first plasmid and a second plasmid, or compositioncomprising a first plasmid and a second plasmid. The first plasmidcomprises a polynucleotide encoding an autoantigen or a donor antigenunder the control of a promoter capable of expressing the polynucleotideencoding the autoantigen or the donor antigen. The second plasmidcomprises a polynucleotide encoding a pro-apoptotic protein under thecontrol of a promoter capable of expressing the polynucleotide encodingthe pro-apoptotic protein. The first plasmid comprises a plurality ofCpG motifs, and at least some of the plurality of CpG motifs aremethylated.

In a preferred embodiment, the promoter capable of expressing thepolynucleotide encoding the autoantigen or the donor antigen maintainsits promoter function after methylation. In another embodiment, thesecond plasmid comprises a plurality of CpG motifs, and at least some ofthe plurality of CpG motifs are methylated.

In a preferred embodiment, the promoter capable of expressing thepolynucleotide encoding a pro-apoptotic protein maintains its promoterfunction after methylation.

In one embodiment, the DNA vaccine comprises the first plasmid andsecond plasmid in a ratio of between 1/1000 to 1000/1. In anotherembodiment, the composition comprises the first plasmid and secondplasmid in a ratio of between 1/100 to 100/1. In another embodiment, thecomposition comprises the first plasmid and second plasmid in a ratio ofbetween 1/10 to 10/1.

In one embodiment of the present invention, the recipient is a mammal.In another embodiment, the recipient is a human.

In another embodiment, the autoantigen is selected from the groupconsisting of carbonic anhydrase II, collagen, CYP2D6 (cytochrome P450,family 2, subfamily Device 400, polypeptide 6), glutamic aciddecarboxylase, secreted glutamic acid decarboxylase 55, SEQ ID NO:1,insulin, myelin basic protein and SOX-10 (SRY-box containing gene 10).

In another embodiment, the pro-apoptotic protein is selected from thegroup consisting of BAX, SEQ ID NO:2, a modified caspase, Tumor NecrosisFactor Receptor, Death Receptor 3 (DR3), Death Receptor 4 (DR4), DeathReceptor 5 (DRS) and a FAS receptor.

In a preferred embodiment, the internal ribosome entry site sequence isan internal ribosome binding site from the EMC virus, SEQ ID NO:3.

The method comprises administering to the recipient one or more than onedose of a DNA vaccine according to the present invention. In a preferredembodiment, the DNA vaccine is administered in a plurality of doses. Inanother preferred embodiment, the dose is between about 0.001 mg/Kg ofbody weight of the recipient and about 100 mg/Kg of body weight of therecipient. In another preferred embodiment, the dose is between about0.01 mg/Kg of body weight of the recipient and about 10 mg/Kg of bodyweight of the recipient. In another preferred embodiment, the dose isbetween about 0.1 mg/Kg of body weight of the recipient and about 1mg/Kg of body weight of the recipient. In another preferred embodiment,the dose is about 0.05 mg/Kg of body weight of the recipient. In apreferred embodiment, the recipient is a human and the dose is betweenabout 0.5 mg and 5 mg. In another preferred embodiment, the recipient isa human and the dose is between about 1 mg and 4 mg. In anotherpreferred embodiment, the recipient is a human and the dose is betweenabout 2.5 mg and 3 mg. In another preferred embodiment, the dose isadministered weekly between 2 times and about 100 times. In anotherpreferred embodiment, the dose is administered weekly between 2 timesand about 20 times. In another preferred embodiment, the dose isadministered weekly between 2 times and about 10 times. In anotherpreferred embodiment, the dose is administered weekly 4 times. Inanother preferred embodiment, the dose is administered only once.

Administering the one or more than one dose of a DNA vaccine to therecipient can be accomplished by any suitable route, as will beunderstood by those with skill in the art with reference to thisdisclosure. In one embodiment, administering to the recipient one ormore than one dose of a substance or a composition is performed by aroute selected from the group consisting of epidermal, intradermal,intramuscular, intranasal, intravenous and oral. In a preferredembodiment the DNA vaccine is administered proximal to the site of theallograft or allogeneic transplant. For example, the plasmid DNA doesnot have to be injected into a skin graft, but can be injected directlyintradermally into the recipient.

When the method comprises administering a first plasmid and a secondplasmid, the first plasmid and the second plasmid can be administeredeither sequentially or simultaneously, as will be understood by thosewith skill in the art with reference to this disclosure.

When the method comprises administering a first plasmid and a secondplasmid, the method can further comprise inducing a donor-specificimmune response that elevates Th2-like activity, which can includeinducing expression of Il-4 in the allograft.

When the method comprises administering a first plasmid and a secondplasmid, the method can further comprise inducing expression of FcαIIbin the allograft.

When the method comprises administering a first plasmid and a secondplasmid, the method can further comprise decreasing expression ofpro-inflammatory Tnf-α and Ifn-γ genes.

In one embodiment, the method further comprises administering a dose ofone or more than one immunosuppressant agent before, on the day of,and/or after engraftment or transplantation.

When the method comprises administering one or more than oneimmunosuppressant agent, the one or more than one immunosuppressantagent can be administered simultaneously, separately or sequentially.

In one embodiment, the one or more than one immunosuppressant agent isselected from the group consisting of corticosteroids, glucocorticoids.cyclophosphamide, 6-mercaptopurine (6-MP), azathioprine (AZA),methotrexate cyclosporine, mycophenolate mofetil (MMF), mycophenolicacid (MPA), tacrolimus (FK506), sirolimus ([SRL] rapamycin), everolimus(Certican), mizoribine, leflunomide, deoxyspergualin, brequinar,azodicarbonamide, vitamin D analogs, such as MC1288 andbisindolylmaleimide VIII, antilymphocyte globulin, antithymocyteglobulin (ATG), anti-CD3 monoclonal antibodies, (Muromonab-CD3,Orthoclone OKT3), anti-interleukin (IL)-2 receptor (anti-CD25)antibodies, (Daclizumab, Zenapax, basiliximab, Simulect), anti-CD52antibodies, (Alemtuzumab, Campath-1H), anti-CD20 antibodies (Rituximab,Rituxan), anti-tumor necrosis factor (TNF) reagents (Infliximab,Remicade, Adalimumab, Humira) and LFA-1 inhibitors (Efalizumab,Raptiva).

The dosages of the immunosuppressant agents will vary depending on theindividual to be treated, the route of administration, and the natureand severity of the condition to be treated. For example, an initialdose of about 2 to 3 times the maintenance dose may suitably beadministered about 4 to 12 hours before transplantation, followed by adaily dosage of 2 to 3 times the maintenance dose for one to two weeks,before gradually tapering down at a rate of about 5% a week to reach themaintenance dose.

The skilled person may determine those dosages that provide atherapeutic amount of an immunosuppressant agent at a level that istolerated. In a preferred embodiment, the method further comprisesadministering a single dose of antilymphocyte globulin of about 1.6mg/20 g of body weight on the day of engraftment or transplantation. Inanother preferred embodiment, rapamycin may be applied at a dosage rangeof from about 0.05 to about 15 mg/kg/day, more preferably from about0.25 to about 5 mg/kg/day and most preferably from about 0.5 to about1.5 mg/kg/day. Ideally, the administration of doses of one or more thanone immunosuppressant agent can be curtailed after effective treatmentwith the DNA vaccine.

In one embodiment, the method further comprises, after administering theDNA vaccine, monitoring the recipient for rejection of the allograft oftransplant. In a preferred embodiment, the recipient is monitored forrejection of the allograft or transplant after tapering off ordiscontinuing the administration of immunosuppressant agents.

Example 1 Plasmid DNA Constructs, Methylation, and Amplification

The following examples were designed to test whether our pro-apoptoticDNA vaccination strategy is applicable to prevention of solid allograftrejection. Our model suggests that injection of plasmid DNA coding forBAX near the allograft would cause recruitment of APCs after inductionof apoptotic cells, the APCs would process donor antigens undertolerogenic conditions, and a protective, immunoregulatory responsewould be induced.

In order to compare the efficacy of different DNA vaccines forpreventing, delaying the onset of or treating the rejection of anallograft or organ transplant according to the present invention,several plasmids were prepared. Referring now to FIG. 1, there areshown, respectively, a schematic depiction of pSG5, pND2, pSG5-SGAD55,and pND2-hBAX.

Plasmid pSG5 was purchased from Stratagene (San Diego, Calif. US). Theremaining plasmids were produced using standard techniques. PlasmidpND2-BAX carries a BAX cDNA under transcriptional control of the CMVpromoter, and plasmid pSG5-SGAD55 carries a cDNA construct encoding asecreted form of GAD65 under transcriptional control of the SV-40promoter.

With reference to FIG. 1, the abbreviations shown are standard, as willbe understood by those with skill in the art with reference to thisdisclosure, including: AMP (ampicillin resistance gene for selection inE. coli); BGH pA (bovine growth hormone polyadenylation sequence); ColE1origin (origin of replication in E. coli); f1 origin (origin ofreplication for filamentous phage f1 to generate single stranded DNA);hBAX (human bax cDNA), SEQ ID NO: 2; HCMV promoter (promoter fromcytomegalovirus); HCMV intron (intron from cytomegalovirus); MCS(multiple cloning site); pUC origin (origin of replication for E. colifrom pUC plasmid); sgad55 (secreted GAD cDNA construct), SEQ ID NO:1;SV40 promoter (simian virus 40 promoter); SV40 pA (simian virus 40polyadenylation sequence); and T7 (T7 promoter).

Plasmids pSG5 and pSG-SGAD55 were methylated to produce methylated pSG5,and methylated pSG5-SGAD55, by amplification in E. coli strain ER1821carrying a plasmid encoding the SssI methylase (New England Biolabs,Beverly, Mass. US). SssI methylates the dinucleotide motif CpG in DNA ina manner corresponding to mammalian methylases by covalently adding asingle methyl group to the dinucleotide motif CpG.

Plasmid DNA was isolated after amplification in Escherichia coli strainDH5a or ER1821 using the Endofree Plasmid DNA Purification Kit (Qiagen,Valencia, Calif.). Successful methylation was confirmed by digesting theisolated plasmid DNA with the restriction enzyme HpaII which digestsunmethylated but not methylated DNA, where resistance to HpaII digestionindicates successful methylation.

Example 2 Skin Allograft Survival

An allograft skin transplant model was used as proof of principlebecause it is one of the most difficult models for prevention of organrejection. A combination of two of the plasmid constructs (2-plasmidvaccine coding for secreted GAD, i.e., SGAD55, and pro-apoptotic BAX,with one plasmid methylated with SssI methylase) has been usedsuccessfully as a DNA vaccine for therapy of type 1 diabetes in NODmice. However, each of the two DNA constructs (plasmid DNA coding forBAX alone, or SssI-methylated plasmid DNA coding for SGAD55 alone) werefound to be ineffective for therapy of diabetes on their own.Unexpectedly, we now find that all three alternatives can prevent skinallograft rejection.

The effects of i.d. injection of different DNA vaccines wereinvestigated m C57BL/6 mice receiving minimum immunosuppression and skinallografts from BALB/c mice. 0.7×0.7 cm full-thickness back skin graftsfrom BALB/c donors or C3H third party were transplanted onto the back ofC57BL/6 recipients. With the exception of the untreated group,anti-lymphocyte immunoglobulin ALG (1.6 mg/20 g BW) was given i.p. onceon day 0. Fifty μg of the following plasmid DNAs: 1) vector alone, 2)DNA coding for BAX alone, 3) SssI-methylated DNA coding for SGAD55 alone(Msgad55), or 4) DNA coding for BAX together with SssI-methylated DNAcoding for SGAD55 (Msgad55+bax), were injected i.d. near the skin grafton day 0, 3, 7, and then weekly. Rapamycin (1 mg/kg) was injected i.p.daily from days 0-27. Bandages were removed on day 10, and skin graftrejection was defined as 85% loss of the graft area, and confirmed bypathological analysis.

FIG. 2A shows that non-methylated plasmid DNA coding for BAX alone couldsignificantly delay skin rejection compared to mice receiving vector DNAalone, but that non-methylated plasmid DNA coding for sGAD alone didnot. Injection of non-methylated plasmid vector alone had no significanteffect on allograft survival compared to non-vaccinated,immunosuppressed mice.

In addition, we investigated the effects of CpG-methylation of vaccineDNA and of combined delivery of plasmid DNA coding for sGAD and BAX onskin allograft survival. CpG-methylation of the vaccine coding for sGADalone (MsGAD) resulted in increased allograft survival (FIG. 2B), whichwas significant compared to mice immunized with the non-methylatedvaccine coding for sGAD alone and CpG-methylated vector control.However, combined delivery of CpG-methylated plasmid DNA coding forsecreted GAD and plasmid DNA coding for BAX resulted in increasedsurvival only when compared with mice vaccinated with vector controlsand non-immunized mice, which indicated an antagonistic effect of BAX.

Without being held to any particular underlying mechanisms behind theobserved effects, we suspect that it may involve donor antigen-specificimmunoregulation for the constructs coding for BAX, based on ourprevious model for a pro-apoptotic DNA vaccination strategy. We do notknow what the mechanism of action is for the third construct(SssI-methylayed DNA coding for SGAD55).

Example 3 RNA Isolation and qPCR

We investigated the effects of the MsGAD-BAX vaccine, which showedefficacy in both prevention of skin allograft rejection and ameliorationof new-onset diabetes in NOD mice in previous work, and of the BAXvaccine on the expression of chosen genes m transplanted BALB/c skin andfreshly isolated LNs of recipient C57BL/6 mice.

For immune analysis, draining lymph nodes of mice receiving ALG andrapamycin alone, and from mice treated with the vaccine coding for BAXand SGAD55, were taken 2 weeks after transplantation. Lymph nodes werecultured in the presence of inactivated splenocytes from C57/BL6(recipient), BALB/c (donor), or DBA (third party) as sources ofantigens, and CD4+CD25+ and CD4+CD25− cells were isolated forproliferation assays.

Quantitative PCR analysis of expression of selected genes was performedwith skin allografts, cultured lymph nodes, and CD4+CD25+/CD25− cellsisolated from proliferation assays. In addition to the Il-4, Il-10,Tgf-β1, Tnf-α, and Ifn-γ genes, we quantified the expression of genescoding for the co-stimulatory molecules CD80 and CD86 found on APCs, thetranscriptional factor FOXP3 synthesized by regulatory T cells (Tregs),and the inhibitory receptor FcγRIIB and IL-1-antagonist IL-1RA cytokine,which are both up-regulated in murine tolerogenic DCs.

Total RNA was isolated using Trizol LS reagent (Invitrogen, Cartsbad,Calif.) from freshly taken skin allograft and draining LNs 2 weeks aftertransplantation. RNA was also isolated from LNs cultured for 3 days inas described above. qPCR was performed using the iCycler system and SYBRgreen (Bio Rad, Hercules, Calif.) with 200 ng of total RNA as templateand primers specific for the chosen cDNAs, and for the GAPDH cDNA as ahousekeeping gene.

In the transplanted skin, the most striking differences between the twovaccines were increased expression of the Il-4 and FcγrIIb genes anddecreased expression of the Tnf-α and lfn-γ genes in mice immunized withMsGAD-BAX (FIG. 3A). In LNs, the most apparent differences wereincreased expression of the Foxp3, Il-10, Tgf-β1, and Cd86 genes in miceimmunized with BAX, and decreased expression of the Tnf-α and Ifn-γgenes in mice immunized with MsGAD-BAX (FIG. 3B). Increased expressionof Cd86 was also observed in mice immunized with MsGAD-BAX, but to anextent that was proportional to the amount of delivered Bax cDNA. Nosignificant change in the expression of the Cd80 gene was observed (datanot shown). These data indicated that the two vaccines induced clearlydistinct immune responses.

Several pieces of evidence indicated that BAX and MsGAD-BAX induceddonor-specific immune responses. First, gene expression analysis of LNsfrom C57BL/6 mice receiving BALB/c skin allografts and cultured for 3days revealed several significant differences when cells were stimulatedwith self, donor, or third party antigens (FIG. 3C). Compared tostimulation with third party antigens, cells from mice immunized withBAX and MsGAD-BAX and stimulated with donor antigens showed asignificant change in expression in 8 and 5 of the 9 chosen genes,respectively. In contrast, compared to stimulation with self antigens,cells from mice immunized with BAX and MsGAD-BAX and stimulated withdonor antigens showed change in expression in 4 and 2 of the 9 genes,respectively. These results indicated that the gene expression profileafter donor antigen stimulation was markedly different from the thirdparty antigen profile and more similar to the self antigen profile. Inaddition, the finding that genes like FcγrIIb and Il-1ra, which areup-regulated in tolerogenic DCs, were induced only when stimulated withdonor antigens corroborated the notion of a donor-specific tolerogenicresponse.

Example 4 Adoptive Cell Transfer

Cells from spleen and draining axillary and cervical lymph nodes (LNs)were isolated 2 weeks post donor skin graft transplant and suspended inPBS; 5×10⁶ total cells per recipient were injected i.p. at day −2, and 3Gy TBI irradiation was given on day −3. Donor or third party back skingrafts were transplanted on day 0, and rapamycin (1 mg/kg) was giveni.p. daily.

Results from adoptive transfer experiments indicated and LN cells fromC57BL/6 mice receiving BALB/c skin graft and immunized with MsGAD-BAXcould transfer survival of donor but not third party graft (FIG. 4). Incontrast, cells from mice immunized with BAX did not significantlyprevent rejection of either donor or third party graft.

Example 5 MLR

LNs were dispersed and stimulated with mitomycin C-treated splenocytesfrom C57BL/6, BALB/c, and C3H mice for 5 days with 2 or 5 μg/ml IL-2 forMLR using 2 μM CFSE-labeled LN cells. Results from MLR usingCSFE-labeled LN cells cultured with inactivated splenocytes from donorand third party antigens also indicated a donor-specific immune responsefor each vaccine. In the presence of 2 μg/ml IL-2, LN cells fromnon-vaccinated, immunosuppressed mice did not show a significantdifference in suppression when stimulated with donor or third partyantigens (FIG. 5A). In contrast, LN cells from mice immunized with BAXor MsGAD-BAX showed a significant difference in their response to thirdparty antigen compared to donor antigen. Culture with 5 μg/ml IL-2 didnot restore proliferation and accentuated these differences (FIG. 5B).

CONCLUSION

Specific embodiments of the present invention described herein addressthe problems of preventing rejection of allografts without having toknow the identity of the donor antigens, and of reducing the need forimmunosuppressants that are known to have serious side-effects over thelong term. Our results indicate that “pro-apoptotic” DNA vaccination canbe applied successfully to solid organ transplantation. Injection of BAXDNA appears to induce a donor-specific immunoregulatory response thatcontributes to increased graft survival.

One explanation for the observed effects is that vaccination withplasmid DNA coding for BAX induces apoptotic cells that recruit antigenpresenting cells. The antigen presenting cells process the tolerogenicapoptotic cells together with donor antigens and protects the allograft,most likely via multiple immune mechanisms. However, considering thatexpression of Foxp3, Il-10 and Tgf-β1 was consistently higher innon-vaccinated, immunosuppressed animals, other mechanisms of toleranceinduced by our DNA vaccination strategy are likely to play a role inexpressing graft survival. Unexpectedly, injection of SssI-methylatedcoding for SGAD55 alone could prolong graft survival. The same vaccinewas ineffective for treatment of type diabetes in our previous studies.Consequently, the underlying mechanism for graft survival using thisapproach remains to be determined.

Our data indicates that both the BAX and MsGAD-BAX vaccines induced adonor-specific immune response, albeit via two different mechanisms. TheBAX vaccine caused changes in gene expression mainly in fresh LNs, mostlikely because of the recruitment of APCs to LNs after plasmidDNA-mediated induction of apoptosis. Increased expression of Cd86associated with delivery of the bax cDNA was not linked with concomitantCd80 expression, which indicated induction of Cd86. The CD86 molecule isthe main ligand for CD28 and promotes inflammation. Significantly, LNcells of BAX-immunized mice showed highly increased expression of theTnf-α and lfn-γ genes when stimulated with self antigens, which was notobserved with cells stimulated with donor antigens or with cells frommice immunized with MsGAD-BAX and stimulated with self antigens. Theseresults suggest that induction of recipient apoptotic cells near theallograft could have amplified the autoimmune response that is known tobe induced by a skin allograft via an indirect alloresponse.

In addition, fresh LNs and LN cells from BAX-immunized mice stimulatedwith third party antigen showed increased expression of Foxp3, Il-10,and Tgf-βI, which is associated with CD4+CD25+ regulatory T cellactivity. However, it is unlikely that such cells were responsible alonefor increased allograft survival, because adoptive transfer of spleenand LN cells from BAX-immunized mice did not prevent rejection of eitherdonor or third party allografts. Rather, these results suggested thatthe BAX vaccine promoted graft survival via a different mechanism, likeclonal deletion. The lesser efficacy of the BAX vaccine could have beenthe result of the autoimmune response it induced. Nevertheless, it theefficacy of the vaccine may be improved using CpG-methylation of plasmidDNA to lower inflammation resulting from interaction between bacterialplasmid DNA and TLR-9, and by injecting the DNA outside of theinflammatory milieu induced by the allograft.

In contrast with BAX, the MsGAD-BAX vaccine induced expression in theallograft of Il-4, which indicated Th2-like activity, and of FcγIIb,which is up-regulated in tolerogenic DCs. Moreover, the MsGAD-BAXvaccine caused decreased expression of the pro-inflammatory Tnf-α andIfn-γ genes in both transplanted skin and fresh LNs, did not appear topromote autoimmunity, and induced cells that transferred graft survivalin a donor-specific manner. Notably, GAD is found in skin, which weconfirmed in skin allografts using qPCR (data not shown), and isup-regulated in inflamed tissues. Therefore, the sGAD polypeptide mayact as a regulatory autoantigen that prevents allograft rejection.Indeed, the strongest evidence that autoimmunity plays a role inallograft rejection comes from experiments where administration ofautoantigens present in the donor graft can prevent rejection of lung orheart allografts, or accelerate rejection when injected with Freund'sadjuvant into recipient. Our finding that Il-4 expression was increasedin skin allograft corroborates the notion that this cytokine can be akey element in the process.

In conclusion, plasmid DNA-mediated induction of recipient apoptoticcells and delivery of an allograft-associated autoantigen form the basisof a new DNA vaccination strategy that targets allograft-inducedautoimmunity to prevent transplant rejection. This approach, which isreadily amenable to manipulation at the molecular and cellular levelsfor further improvement, provides a promising means to control chronicrejection in which allograft-induced autoimmunity is thought to play asignificant role.

The various embodiments described above can be combined to providefurther embodiments. All of the U.S. patents, U.S. patent applicationpublications, U.S. patent applications, foreign patents, foreign patentapplications and non-patent publications referred to in thisspecification and/or listed in the Application Data Sheet, including butnot limited to U.S. patent application Ser. No. 13/543,567, areincorporated herein by reference in their entirety. Aspects of theembodiments can be modified, if necessary, to employ concepts of thevarious patents, applications and publications to provide furtherembodiments.

These and other changes can be made to the embodiments in light of theabove-detailed description. In general, in the following claims, theterms used should not be construed to limit the claims to the specificembodiments disclosed in the specification and the claims, but should beconstrued to include all possible embodiments along with the full scopeof equivalents to which such claims are entitled. Accordingly, theclaims are not limited by the disclosure.

1.-32. (canceled)
 33. A method for inducing a tolerogenic response,comprising intradermally administering to a graft or transplantrecipient an effective amount of a DNA vaccine composition, therebyinducing a tolerogenic response to (i) a donor antigen to prevent orminimize late-onset graft or transplant rejection, and/or (ii) anautoantigen to prevent or minimize transplant induced autoimmunity,wherein the DNA vaccine composition comprises (a) a first plasmidcomprising a polynucleotide encoding a pro-apoptotic protein operablylinked to a promoter that controls the expression of the polynucleotideencoding the pro-apoptotic protein, wherein the encoded pro-apoptoticprotein is selected from the group consisting of BAX, SEQ ID NO.:2,Death Receptor 3 (DR3), Death Receptor 4 (DR4), Death Receptor 5 (DR5),and a FAS receptor; and (b) a second plasmid comprising a polynucleotideencoding an autoantigen or the donor antigen operably linked to apromoter that controls the expression of the polynucleotide encoding theautoantigen or donor antigen, and comprising a plurality of CpG motifs,wherein at least some of the plurality of CpG motifs are methylated andresistant to digestion by restriction endonuclease HpaII.
 34. The methodof claim 33, wherein the graft or transplant comprise tissues or organsselected from the group consisting of skin grafts, islet celltransplants, and partial or whole organ transplants.
 35. The method ofclaim 34, wherein the partial or whole organ transplants are selectedfrom the group consisting of hearts, lungs, kidneys and livers.
 36. Themethod of claim 33, wherein the first and/or second plasmid ismethylated with an SssI DNA methyltransferase.
 37. The method of claim33, wherein the first plasmid and second plasmid contain the samepromoter.
 38. The method of claim 33, wherein the DNA vaccine comprisesthe first plasmid and the second plasmid in a ratio of between 1/10 to10/1.
 39. The method of claim 33, wherein the autoantigen or donorantigen is selected from the group consisting of carbonic anhydrase II,collagen, CYP2D6 (cytochrome P450, family 2, subfamily Device 400,polypeptide 6), glutamic acid decarboxylase, secreted glutamic aciddecarboxylase 55, SEQ ID NO:1, insulin, myelin basic protein and SOX-10(SRY-box containing gene 10).
 40. The method of claim 33, wherein theDNA vaccine prevents or minimizes late-onset allograft or allogeneictransplant rejection.
 41. The method of claim 33, wherein the DNAvaccine is administered in a plurality of doses.
 42. The method of claim33, wherein the DNA vaccine is administered weekly between two times and100 times.
 43. The method of claim 33, wherein the DNA vaccine isadministered proximal to the graft or transplant site.
 44. The method ofclaim 1, further comprising administering an immunosuppressant agentbefore, on the day of, and/or after engraftment or transplantation. 45.The method of claim 44, wherein the immunosuppressant agent isadministered simultaneously, separately or sequentially with the DNAvaccine.
 46. The method of claim 44, wherein the immunosuppressant agentis selected from the group consisting of corticosteroids,glucocorticoids. cyclophosphamide, 6-mercaptopurine, azathioprine,methotrexate cyclosporine, mycophenolate mofetil, mycophenolic acid,tacrolimus, sirolimus, everolimus, mizoribine, leflunomide,deoxyspergualin, brequinar, azodicarbonamide, vitamin D analogs,antilymphocyte globulin, antithymocyte globulin, anti-CD3 monoclonalantibodies, anti-interleukin-2 receptor (anti-CD25) antibodies,anti-CD52 antibodies, anti-CD20 antibodies, anti-tumor necrosis factorreagents and LFA-1 inhibitors.
 47. The method of claim 44, comprisingadministering a single dose of anti-lymphocyte globulin, at a doseranging from about 1.6 mg/20 g of body weight, on the day of engraftmentor transplantation.
 48. The method of claim 44, comprising administeringrapamycin at a dose ranging from 0.05 mg/day to 15 mg/day.
 49. A methodfor inducing a tolerogenic response, comprising intradermallyadministering to a subject having an autoimmune disease an effectiveamount of a DNA vaccine composition, thereby inducing a tolerogenicresponse to an autoantigen to prevent or minimize an autoimmuneresponse, wherein the DNA vaccine composition comprises (a) a firstplasmid comprising a polynucleotide encoding a pro-apoptotic proteinoperably linked to a promoter that controls the expression of thepolynucleotide encoding the pro-apoptotic protein, wherein the encodedpro-apoptotic protein is selected from the group consisting of BAX, SEQID NO.:2, Death Receptor 3 (DR3), Death Receptor 4 (DR4), Death Receptor5 (DR5), and a FAS receptor; and (b) a second plasmid comprising apolynucleotide encoding an autoantigen operably linked to a promoterthat controls the expression of the polynucleotide encoding theautoantigen, and comprising a plurality of CpG motifs, wherein at leastsome of the plurality of CpG motifs are methylated and resistant todigestion by restriction endonuclease HpaII.